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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ), 'gf_id' => 'HOM05D001035', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001035' ), 'data_identifier' => 'HOM05D001035', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001035', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p30750' => 'bna', 'A01p39480' => 'bna', 'A02p06510' => 'bna', 'A03p10290' => 'bna', 'A05p20330' => 'bna', 'A05p35240' => 'bna', 'A06p13270' => 'bna', 'A07p14280' => 'bna', 'A08p02900' => 'bna', 'A08p28460' => 'bna', 'A09p05670' => 'bna', 'A09p42140' => 'bna', 'A09p60430' => 'bna', 'A09p60440' => 'bna', 'A09p60450' => 'bna', 'A10p19230' => 'bna', 'Aa31LG4G12980' => 'aar', 'Aa31LG7G2150' => 'aar', 'Aa31LG7G2170' => 'aar', 'Aa31LG7G6510' => 'aar', 'Aa31LG8G1460' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.177' => 'aag', 'Actinidia18883' => 'ach', 'Actinidia21821' => 'ach', 'Actinidia24439' => 'ach', 'Actinidia24440' => 'ach', 'Actinidia26002' => 'ach', 'Actinidia26004' => 'ach', 'Actinidia31151' => 'ach', 'Actinidia31152' => 'ach', 'Actinidia35139' => 'ach', 'Actinidia39616' => 'ach', 'Ah.05g178430' => 'amhyb', 'Ah.08g217180' => 'amhyb', 'Ah.08g217190' => 'amhyb', 'Ah.09g228910' => 'amhyb', 'Ah.15g095070' => 'amhyb', 'AL1G29590' => 'aly', 'AL1G36150' => 'aly', 'AL3G26470' => 'aly', 'AL5G21290' => 'aly', 'AL6G32350' => 'aly', 'Aqoxy5G03463' => 'aox', 'Aqoxy7G00976' => 'aox', 'Aqoxy7G04159' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0L0BEE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3S9IG3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.AW4SPM' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BIQ6LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.C3AF7H' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.E10R0K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FZUB0X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IN5U2X' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JAAZ6K' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.KZ7LLB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LDG2HB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LNG26A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LX8XJC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.MI827N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RGE3UE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.U1SSAV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.V13CJX' => 'arhy', 'AT1G17340' => 'ath', 'AT1G22620' => 'ath', 'AT3G14205' => 'ath', 'AT3G43220' => 'ath', 'AT5G20840' => 'ath', 'ATR0317G054' => 'atr', 'ATR0693G444' => 'atr', 'Atru.chr1.4127' => 'acertr', 'Atru.chr13.2382' => 'acertr', 'Atru.chr7.1768' => 'acertr', 'AUR62001429' => 'cqu', 'AUR62001430' => 'cqu', 'AUR62004617' => 'cqu', 'AUR62009937' => 'cqu', 'AUR62009938' => 'cqu', 'AUR62022644' => 'cqu', 'AUR62025337' => 'cqu', 'AUR62028322' => 'cqu', 'BcaB01g04766' => 'bca', 'BcaB03g11914' => 'bca', 'BcaB03g14194' => 'bca', 'BcaB04g17534' => 'bca', 'BcaB04g20010' => 'bca', 'BcaB05g22808' => 'bca', 'BcaB05g22811' => 'bca', 'BcaB05g24126' => 'bca', 'BcaB06g29605' => 'bca', 'BcaB07g30986' => 'bca', 'BcaB07g32272' => 'bca', 'BcaB07g34032' => 'bca', 'BcaB08g34772' => 'bca', 'BcaB08g37324' => 'bca', 'BcaC03g13803' => 'bca', 'BcaC04g19473' => 'bca', 'BcaC05g25648' => 'bca', 'BcaC05g26190' => 'bca', 'BcaC05g29113' => 'bca', 'BcaC05g29114' => 'bca', 'BcaC05g29115' => 'bca', 'BcaC05g29116' => 'bca', 'BcaC05g29117' => 'bca', 'BcaC05g29118' => 'bca', 'BcaC06g34979' => 'bca', 'BcaC07g39169' => 'bca', 'BcaC07g41414' => 'bca', 'BcaC07g41417' => 'bca', 'BcaC07g41426' => 'bca', 'BcaC09g48388' => 'bca', 'BNapus_Darmor_BZH_scaffold_38p01320' => 'bna', 'BolC1t04994H' => 'bol', 'BolC2t07075H' => 'bol', 'BolC3t13652H' => 'bol', 'BolC4t24619H' => 'bol', 'BolC5t30277H' => 'bol', 'BolC5t30870H' => 'bol', 'BolC5t34019H' => 'bol', 'BolC7t41991H' => 'bol', 'BolC7t42632H' => 'bol', 'BolC8t49800H' => 'bol', 'BolC8t51940H' => 'bol', 'BolC8t51941H' => 'bol', 'BolC8t51943H' => 'bol', 'BolC9t58397H' => 'bol', 'BraA01t03989Z' => 'bra', 'BraA02t05596Z' => 'bra', 'BraA03t10340Z' => 'bra', 'BraA04t17892Z' => 'bra', 'BraA05t22335Z' => 'bra', 'BraA07t29185Z' => 'bra', 'BraA08t34775Z' => 'bra', 'BraA09t39700Z' => 'bra', 'BraA09t41414Z' => 'bra', 'BraA09t41415Z' => 'bra', 'BraA09t41417Z' => 'bra', 'BraA10t44000Z' => 'bra', 'C01p50420' => 'bna', 'C02p10430' => 'bna', 'C02p10440' => 'bna', 'C03p11820' => 'bna', 'C03p24450' => 'bna', 'C04p30980' => 'bna', 'C05p15720' => 'bna', 'C05p21760' => 'bna', 'C05p53420' => 'bna', 'C07p14910' => 'bna', 'C07p21000' => 'bna', 'C08p21620' => 'bna', 'C08p43910' => 'bna', 'C08p43920' => 'bna', 'C08p43930' => 'bna', 'C09p55350' => 'bna', 'CAN.G101.28' => 'can', 'CAN.G101.29' => 'can', 'CAN.G101.30' => 'can', 'CAN.G102.3' => 'can', 'CAN.G102.4' => 'can', 'CAN.G1318.3' => 'can', 'CAN.G228.4' => 'can', 'CAN.G228.5' => 'can', 'CAN.G23.22' => 'can', 'CAN.G790.68' => 'can', 'CANSAT01G0217' => 'cansat', 'CANSAT56G2505' => 'cansat', 'CANSAT56G3741' => 'cansat', 'CARHR017930' => 'chi', 'CARHR022990' => 'chi', 'CARHR089090' => 'chi', 'CARHR153460' => 'chi', 'CARHR192010' => 'chi', 'Carub.0001s1709' => 'cru', 'Carub.0001s2213' => 'cru', 'Carub.0003s1388' => 'cru', 'Carub.0005s0904' => 'cru', 'Carub.0006s1913' => 'cru', 'Ca_19705_v3' => 'car', 'Ca_21340_v3' => 'car', 'Ca_23423_v3' => 'car', 'Ca_30847_v3' => 'car', 'CBR_g54840' => 'cbr', 'CBR_g54842' => 'cbr', 'Cc04_g00880' => 'ccan', 'Cc06_g12710' => 'ccan', 'Cc10_g10150' => 'ccan', 'CDE02G2546' => 'cde', 'CDE05G3213' => 'cde', 'CDE11G0831' => 'cde', 'Cfa003488' => 'cfa', 'Cfa012766' => 'cfa', 'Cfa023616' => 'cfa', 'Ciclev10000204m.g' => 'ccl', 'Ciclev10007455m.g' => 'ccl', 'Ciclev10024924m.g' => 'ccl', 'CiPaw.01G213600' => 'cil', 'CiPaw.02G132500' => 'cil', 'CiPaw.02G132600' => 'cil', 'CiPaw.03G200300' => 'cil', 'CiPaw.04G140300' => 'cil', 'CiPaw.05G209000' => 'cil', 'CiPaw.05G209400' => 'cil', 'CiPaw.08G002100' => 'cil', 'ClCG09G001260' => 'cla', 'ClCG11G000140' => 'cla', 'ClCG11G000150' => 'cla', 'ClCG11G000160' => 'cla', 'ClCG11G000190' => 'cla', 'ClCG11G008580' => 'cla', 'ClCG11G008620' => 'cla', 'ClCG11G008630' => 'cla', 'COL.COLO4_21206' => 'col', 'COL.COLO4_30835' => 'col', 'Cpa.g.sc25.178' => 'cpa', 'Cpa.g.sc3240.1' => 'cpa', 'Cpa.g.sc66.12' => 'cpa', 'Cpa.g.sc66.13' => 'cpa', 'Cpa.g.sc66.14' => 'cpa', 'Cpa.g.sc66.15' => 'cpa', 'Cpa.g.sc82.62' => 'cpa', 'Cre12.g537500' => 'cre', 'CsaV3_2G033000' => 'csa', 'CsaV3_5G027710' => 'csa', 'CsaV3_6G022760' => 'csa', 'CsaV3_6G022770' => 'csa', 'CsaV3_7G034090' => 'csa', 'CsaV3_7G034100' => 'csa', 'CSS0006357' => 'camsi', 'CSS0012418' => 'camsi', 'CSS0025594' => 'camsi', 'CSS0026011' => 'camsi', 'CSS0037120' => 'camsi', 'CSS0037604' => 'camsi', 'CSS0038748' => 'camsi', 'CSS0040615' => 'camsi', 'DCAR_001460' => 'dca', 'DCAR_007655' => 'dca', 'DCAR_010489' => 'dca', 'DCAR_011522' => 'dca', 'DCAR_024779' => 'dca', 'DCAR_026430' => 'dca', 'DCAR_026431' => 'dca', 'Dinv20394' => 'din', 'Dinv25505' => 'din', 'Dinv37832' => 'din', 'Dinv41743' => 'din', 'Dinv42433' => 'din', 'Duzib116G0807' => 'dzi', 'Duzib150G1380' => 'dzi', 'Duzib160G0796' => 'dzi', 'Duzib168G2015' => 'dzi', 'Duzib235G0292' => 'dzi', 'ECA234G2757' => 'eca', 'ECA247G0746' => 'eca', 'ECA247G0867' => 'eca', 'ECA247G1913' => 'eca', 'ECA247G2775' => 'eca', 'EL10Ac1g00120' => 'bvu', 'EL10Ac1g01922' => 'bvu', 'EL10Ac7g16463' => 'bvu', 'EL10Ac7g16464' => 'bvu', 'EL10Ac8g18964' => 'bvu', 'Eucgr.C03195' => 'egr', 'Eucgr.F03001' => 'egr', 'Eucgr.I02139' => 'egr', 'Eucgr.J02604' => 'egr', 'FAN02G1713' => 'fan', 'FAN05G4747' => 'fan', 'FAN08G1353' => 'fan', 'FAN09G2420' => 'fan', 'FAN13G2816' => 'fan', 'FAN14G3685' => 'fan', 'FAN18G0239' => 'fan', 'FAN19G0042' => 'fan', 'FAN23G0988' => 'fan', 'FAN23G2033' => 'fan', 'FAN23G2583' => 'fan', 'FAN26G1728' => 'fan', 'FAN26G1913' => 'fan', 'FAN28G0560' => 'fan', 'FAN28G1581' => 'fan', 'FAN28G1935' => 'fan', 'FvH4_1g09400' => 'fve', 'FvH4_5g32060' => 'fve', 'FvH4_6g35480' => 'fve', 'Glyma.07G043900' => 'gma', 'Glyma.08G238800' => 'gma', 'Glyma.09G073700' => 'gma', 'Glyma.10G060600' => 'gma', 'Glyma.10G061401' => 'gma', 'Glyma.12G001200' => 'gma', 'Glyma.13G114600' => 'gma', 'Glyma.15G182800' => 'gma', 'Glyma.16G012300' => 'gma', 'Glyma.17G045400' => 'gma', 'Glyma.20G071666' => 'gma', 'Gohir.A02G087300' => 'ghi', 'Gohir.A05G137700' => 'ghi', 'Gohir.A06G079700' => 'ghi', 'Gohir.A06G194300' => 'ghi', 'Gohir.A07G017200' => 'ghi', 'Gohir.A10G051300' => 'ghi', 'Gohir.A13G189000' => 'ghi', 'Gohir.D02G102100' => 'ghi', 'Gohir.D04G099350' => 'ghi', 'Gohir.D05G139800' => 'ghi', 'Gohir.D06G079300' => 'ghi', 'Gohir.D06G102833' => 'ghi', 'Gohir.D06G202100' => 'ghi', 'Gohir.D07G017000' => 'ghi', 'Gohir.D08G067750' => 'ghi', 'Gohir.D08G146750' => 'ghi', 'Gohir.D10G053000' => 'ghi', 'Gohir.D11G218451' => 'ghi', 'Gohir.D13G196000' => 'ghi', 'Gorai.001G017800' => 'gra', 'Gorai.002G175500' => 'gra', 'Gorai.005G115800' => 'gra', 'Gorai.007G235500' => 'gra', 'Gorai.009G144100' => 'gra', 'Gorai.009G402200' => 'gra', 'Gorai.010G092400' => 'gra', 'Gorai.010G235900' => 'gra', 'Gorai.011G056600' => 'gra', 'Gorai.013G145000' => 'gra', 'Gorai.013G222100' => 'gra', 'GSVIVG01015013001' => 'vvi', 'GSVIVG01016693001' => 'vvi', 'GSVIVG01036236001' => 'vvi', 'HanXRQChr02g0044241' => 'han', 'HanXRQChr03g0060021' => 'han', 'HanXRQChr04g0094271' => 'han', 'HanXRQChr05g0152851' => 'han', 'HanXRQChr10g0311941' => 'han', 'HanXRQChr12g0360131' => 'han', 'Haze_16106' => 'cav', 'Haze_16107' => 'cav', 'Haze_21290' => 'cav', 'Haze_26070' => 'cav', 'Hma1.2p1_0229F.1_g096980' => 'hma', 'Hma1.2p1_0352F.1_g133070' => 'hma', 'HPP92_001194' => 'vpl', 'HPP92_005870' => 'vpl', 'HPP92_010937' => 'vpl', 'HPP92_019281' => 'vpl', 'HPP92_019319' => 'vpl', 'Hund05548' => 'sun', 'Hund05711' => 'sun', 'Hund05712' => 'sun', 'Hund08901' => 'sun', 'Hund18652' => 'sun', 'Hund26111' => 'sun', 'Hund27102' => 'sun', 'Lalb_Chr01g0000111' => 'lal', 'Lalb_Chr04g0261161' => 'lal', 'Lalb_Chr04g0261171' => 'lal', 'Lalb_Chr07g0181421' => 'lal', 'Lalb_Chr10g0101201' => 'lal', 'Lalb_Chr10g0101211' => 'lal', 'Lalb_Chr12g0200351' => 'lal', 'Lalb_Chr17g0343351' => 'lal', 'Lalb_Chr18g0044911' => 'lal', 'Lj3A34G36' => 'lonja', 'Lj3g0009046' => 'lja', 'Lj3g0011512' => 'lja', 'Lj4g0012203' => 'lja', 'Lj6g0016844' => 'lja', 'Lj7C693G5' => 'lonja', 'Lj9A536G72' => 'lonja', 'Lsat_1_v5_gn_1_12260' => 'lsa', 'Lsat_1_v5_gn_1_38501' => 'lsa', 'Lsat_1_v5_gn_5_136700' => 'lsa', 'Lsat_1_v5_gn_7_35481' => 'lsa', 'Manes.02G196600' => 'mes', 'Manes.03G044800' => 'mes', 'Manes.04G149500' => 'mes', 'Manes.11G014300' => 'mes', 'Manes.11G014501' => 'mes', 'Manes.16G090400' => 'mes', 'Mapoly0001s0261' => 'mpo', 'MBI03_g13494_MAGBIO' => 'mbi', 'MBI13_g01671_MAGBIO' => 'mbi', 'MBI19_g36228_MAGBIO' => 'mbi', 'MCO08G201' => 'mco', 'MCO08G287' => 'mco', 'MD02G1102300' => 'mdo', 'MD08G1219600' => 'mdo', 'MD09G1175500' => 'mdo', 'MD15G1223800' => 'mdo', 'MD15G1408200' => 'mdo', 'MD16G1216700' => 'mdo', 'MD17G1151300' => 'mdo', 'Medtr4g032925' => 'mtr', 'Medtr4g032935' => 'mtr', 'Medtr4g124630' => 'mtr', 'Medtr8g022740' => 'mtr', 'MELO3C008069.2' => 'cme', 'MELO3C022895.2' => 'cme', 'MELO3C024320.2' => 'cme', 'MELO3C024321.2' => 'cme', 'Migut.C01305' => 'egut', 'Migut.I01120' => 'egut', 'Migut.J00880' => 'egut', 'MSTRG.10487' => 'ama', 'MSTRG.19427' => 'ama', 'MSTRG.22526' => 'ama', 'Nitab4.5_0000357g0050' => 'nta', 'Nitab4.5_0001147g0080' => 'nta', 'Nitab4.5_0002013g0020' => 'nta', 'Nitab4.5_0003211g0030' => 'nta', 'Nitab4.5_0003981g0010' => 'nta', 'Nitab4.5_0005903g0010' => 'nta', 'Nitab4.5_0009947g0030' => 'nta', 'Nitab4.5_0010313g0010' => 'nta', 'Nitab4.5_0015297g0010' => 'nta', 'Nitab4.5_0022008g0010' => 'nta', 'Nn3g18383' => 'nnu', 'Nn6g35629' => 'nnu', 'Nn8g38532' => 'nnu', 'Oeu006744.1' => 'oeu', 'Oeu013894.4' => 'oeu', 'Oeu015476.1' => 'oeu', 'Oeu030624.1' => 'oeu', 'Oeu055327.1' => 'oeu', 'Os02g0782600' => 'osa', 'Os03g0182400' => 'osa', 'Os06g0195600' => 'osa', 'Os06g0355150' => 'osa', 'Os07g0421200' => 'osa', 'Os08g0109100' => 'osa', 'Os10g0390900' => 'osa', 'Os10g0428200' => 'osa', 'Peaxi162Scf00038g02246' => 'pax', 'Peaxi162Scf00320g00124' => 'pax', 'Peaxi162Scf00391g00737' => 'pax', 'PGR042G2161' => 'pgr', 'PGR102G2466' => 'pgr', 'PGR119G0954' => 'pgr', 'PGSC0003DMG400009144' => 'stu', 'PGSC0003DMG400009269' => 'stu', 'PGSC0003DMG400028855' => 'stu', 'Phvul.003G127200' => 'pvu', 'Phvul.009G223600' => 'pvu', 'Phvul.010G125000' => 'pvu', 'Phvul.011G001200' => 'pvu', 'Potri.001G163900' => 'ptr', 'Potri.003G071300' => 'ptr', 'Potri.006G136400' => 'ptr', 'Potri.013G107950' => 'ptr', 'Potri.018G063700' => 'ptr', 'Potri.019G080300' => 'ptr', 'Pp3c15_20440' => 'ppa', 'Pp3c15_2850' => 'ppa', 'Pp3c25_8050' => 'ppa', 'Pp3c25_8060' => 'ppa', 'Pp3c5_9070' => 'ppa', 'PRCOL_00001959' => 'pco', 'Prupe.1G552900' => 'ppe', 'Prupe.3G034500' => 'ppe', 'Prupe.7G192000' => 'ppe', 'Psat4g019840' => 'psa', 'Psat4g166360' => 'psa', 'Psat5g082520' => 'psa', 'Psat7g225680' => 'psa', 'Psat7g225720' => 'psa', 'PSO017G4800' => 'pso', 'PSO104G0139' => 'pso', 'PSO135G0172' => 'pso', 'PSO135G0187' => 'pso', 'PSO135G0783' => 'pso', 'PSO135G0899' => 'pso', 'PSO170G4043' => 'pso', 'PSO421G0389' => 'pso', 'PSO724G1271' => 'pso', 'QL05p001890' => 'qlo', 'QL05p001924' => 'qlo', 'QL11p002968' => 'qlo', 'QL93p0163_0087' => 'qlo', 'RcHm_v2.0_Chr2g0095951' => 'rch', 'RcHm_v2.0_Chr2g0147031' => 'rch', 'RcHm_v2.0_Chr7g0228111' => 'rch', 'Rhsim05G0002000' => 'rsi', 'Rhsim08G0242700' => 'rsi', 'Rhsim11G0054800' => 'rsi', 'Rhsim12G0212500' => 'rsi', 'Sabra01G0128900' => 'sbr', 'Sabra03G0042100' => 'sbr', 'Sabra06G0106600' => 'sbr', 'Sabra13G0093300' => 'sbr', 'Sabra18G0056900' => 'sbr', 'Sabra19G0091500' => 'sbr', 'SalBow6G2123' => 'sbo', 'SalBow6G2529' => 'sbo', 'SalBow7G3463' => 'sbo', 'Sc12g0010830' => 'sci', 'Sc12g0010840' => 'sci', 'Sc15g0000700' => 'sci', 'Sc18g0002850' => 'sci', 'Sc26g0000520' => 'sci', 'Sed0000066' => 'sed', 'Sed0015270' => 'sed', 'Sed0019543' => 'sed', 'SEGI_00048' => 'sgi', 'SEGI_15004' => 'sgi', 'SEGI_16379' => 'sgi', 'SEGI_26296' => 'sgi', 'SGA_v2.0_scaffold118G32518' => 'sas', 'SGA_v2.0_scaffold118G32529' => 'sas', 'SGA_v2.0_scaffold122G33314' => 'sas', 'SGA_v2.0_scaffold21G09560' => 'sas', 'SGA_v2.0_scaffold55G19874' => 'sas', 'SGA_v2.0_scaffold71G23906' => 'sas', 'SHI09037' => 'shi', 'SHI28042' => 'shi', 'SMO360G0012' => 'smo', 'Solyc03g123520.3' => 'sly', 'Solyc07g017430.3' => 'sly', 'Solyc11g022380.3' => 'sly', 'Solyc12g049530.2' => 'sly', 'Solyc12g049540.3' => 'sly', 'Sopen00g011680' => 'spe', 'Sopen03g041290' => 'spe', 'Sopen07g006130' => 'spe', 'Sopen11g011250' => 'spe', 'Sopen12g024010' => 'spe', 'Sp1g15460' => 'spa', 'Sp1g15470' => 'spa', 'Sp1g20120' => 'spa', 'Sp1g20130' => 'spa', 'Sp3g12480' => 'spa', 'Sp5g18490' => 'spa', 'Sp6g23690' => 'spa', 'SpUn0033_0080' => 'spa', 'SpUn0033_0090' => 'spa', 'TAR381G0676' => 'tar', 'TAR383G0664' => 'tar', 'TAR624G0625' => 'tar', 'THA.LOC104799605' => 'tha', 'THA.LOC104808061' => 'tha', 'THA.LOC104810575' => 'tha', 'THA.LOC104810980' => 'tha', 'THA.LOC104812270' => 'tha', 'THA.LOC104815609' => 'tha', 'THA.LOC104822626' => 'tha', 'Thecc.06G127600' => 'tca', 'Thecc.08G188300' => 'tca', 'Thecc.09G070200' => 'tca', 'Thhalv10006740m.g' => 'esa', 'Thhalv10006824m.g' => 'esa', 'Thhalv10006841m.g' => 'esa', 'Thhalv10012697m.g' => 'esa', 'Thhalv10020086m.g' => 'esa', 'TPR.G12668' => 'tpr', 'TPR.G16672' => 'tpr', 'TPR.G34169' => 'tpr', 'TWI14G1389' => 'twi', 'TWI23G0408' => 'twi', 'TWI32G0492' => 'twi', 'TWI34G0853' => 'twi', 'TWI59G1345' => 'twi', 'unitig_0.g932' => 'ugi', 'unitig_26.g9118' => 'ugi', 'unitig_32.g11184' => 'ugi', 'unitig_699.g19397' => 'ugi', 'vmacro00749' => 'vma', 'vmacro00750' => 'vma', 'vmacro00751' => 'vma', 'vmacro15072' => 'vma', 'vmacro17077' => 'vma', 'vmacro22016' => 'vma', 'VMungo0331G1347' => 'vmu', 'VMungo1127G0841' => 'vmu', 'VMungo1215G1452' => 'vmu', 'VMungo1309G0187' => 'vmu', 'Zm00001eb006080' => 'zma', 'Zm00001eb078550' => 'zma', 'Zm00001eb128550' => 'zma', 'Zm00001eb145480' => 'zma', 'Zm00001eb219430' => 'zma', 'Zm00001eb220860' => 'zma', 'Zm00001eb257160' => 'zma', 'Zm00001eb260370' => 'zma', 'Zm00001eb278480' => 'zma', 'Zm00001eb299650' => 'zma', 'Zm00001eb374080' => 'zma', 'Zm00001eb401720' => 'zma' ) $gf_id = 'HOM05D001035' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001035' ) $data_identifier = 'HOM05D001035' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 33, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 10, 'amhyb' => (int) 5, 'aly' => (int) 5, 'aox' => (int) 3, 'arhy' => (int) 17, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 3, 'cqu' => (int) 8, 'bca' => (int) 30, 'bol' => (int) 14, 'bra' => (int) 12, 'can' => (int) 10, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 2, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 3, 'ccl' => (int) 3, 'cil' => (int) 8, 'cla' => (int) 8, 'col' => (int) 2, 'cpa' => (int) 7, 'cre' => (int) 1, 'csa' => (int) 6, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 5, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 3, 'gma' => (int) 11, 'ghi' => (int) 19, 'gra' => (int) 11, 'vvi' => (int) 3, 'han' => (int) 6, 'cav' => (int) 4, 'hma' => (int) 2, 'vpl' => (int) 5, 'sun' => (int) 7, 'lal' => (int) 9, 'lonja' => (int) 3, 'lja' => (int) 4, 'lsa' => (int) 4, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 3, 'mco' => (int) 2, 'mdo' => (int) 7, 'mtr' => (int) 4, 'cme' => (int) 4, 'egut' => (int) 3, 'ama' => (int) 3, 'nta' => (int) 10, 'nnu' => (int) 3, 'oeu' => (int) 5, 'osa' => (int) 8, 'pax' => (int) 3, 'pgr' => (int) 3, 'stu' => (int) 3, 'pvu' => (int) 4, 'ptr' => (int) 6, 'ppa' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 3, 'psa' => (int) 5, 'pso' => (int) 9, 'qlo' => (int) 4, 'rch' => (int) 3, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 3, 'sci' => (int) 5, 'sed' => (int) 3, 'sgi' => (int) 4, 'sas' => (int) 6, 'shi' => (int) 2, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 9, 'tar' => (int) 3, 'tha' => (int) 7, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 3, 'twi' => (int) 5, 'ugi' => (int) 4, 'vma' => (int) 6, 'vmu' => (int) 4, 'zma' => (int) 12 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb401720' $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